ExoA - Revision history

Jstuelk at 08:02, 11 June 2014

2014-06-11T08:02:22Z

134.76.38.147 at 15:18, 2 April 2014

2014-04-02T15:18:20Z

Jstuelk at 16:28, 20 December 2013

2013-12-20T16:28:05Z

Jstuelk: /* Phenotypes of a mutant */

2013-11-27T12:52:56Z

‎Phenotypes of a mutant

Jstuelk at 12:52, 27 November 2013

2013-11-27T12:52:08Z

Fmehne: /* Original publications */

2013-11-27T11:07:14Z

‎Original publications

Jstuelk at 14:25, 21 October 2013

2013-10-21T14:25:31Z

Jstuelk: /* References */

2013-09-13T17:15:50Z

‎References

134.76.70.252 at 15:03, 16 May 2013

2013-05-16T15:03:12Z

134.76.70.252 at 11:46, 14 May 2013

2013-05-14T11:46:00Z

← Older revision		Revision as of 08:02, 11 June 2014
Line 1:		Line 1:
−	* '''Description:~~''' apurinic/apyrimidinic endonuclease, multifunctional DNA-repair enzyme, important for spore dormance<br/><br/>~~	+	{{#bank: ExoA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''exoA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| apurinic/apyrimidinic endonuclease~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| repair of oxidative DNA damage in spores~~
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU40880 exoA]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 29 kDa, 4.592~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 756 bp, 252 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ccpB]]'', ''[[rpsR]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU40880 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU40880 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU40880 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:exoA_context.gif]]~~
−	~~<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>~~
−	\|-
−	\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=exoAA_4197780_4198538_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:exoA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU40880]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[DNA repair/ recombination]]}},~~
−	~~{{SubtiWiki category\|[[sporulation proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SigG regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU40880
−
−	~~===Phenotypes of a mutant ===~~
−	* an ''[[exoA]] [[nfo]]'' double mutant is impaired in germination and spore outgrowth due to the accumulation of DNA lesions, this can be rescued by inactivation of ''[[disA]]'' {{PubMed\|24244006}}
−	* an ''[[exoA]] [[nfo]]'' double mutant is sensitive to radiation {{PubMed\|24123749}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU40880&redirect=T BSU40880]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/exoA-ccpB.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10046]
−
−	~~=== Additional information===~~
−	* [[ExoA]] is functionally redundant with [[Nfo]]
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates (according to Swiss-Prot)
−
−	* '''Protein family:''' DNA repair enzymes AP/exoA family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−	** cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU40880&redirect=T BSU40880]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P37454 P37454]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU40880]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:''' ''[[exoA]]-[[ccpB]]'' (according to [http://dbtbs.hgc.jp/COG/prom/exoA-ccpA.html DBTBS])
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=exoAA_4197780_4198538_-1 exoA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigG]] {{PubMed\|16237020}}
−
−	* '''Regulation:'''
−	** expressed late during sporulation in the forespore ([[SigG]]) {{PubMed\|16237020}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP898 (''exoA''::''kan''), available in [[Jörg Stülke]]'s lab
−	** GP1503 (''exoA''::''kan'', ''nfo''::''cat''), available in [[Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 22933559 </pubmed>~~
−	~~== Original publications ==~~
−	~~<pubmed>24244006,18203828,16237020, 19930460, 10540738 21441501 24123749 24123749</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 55: / Line 55: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/exoA-ccpB.html]
@@ Line 91: / Line 92: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 52: / Line 52: @@
 ===Phenotypes of a mutant ===
 * an ''[[exoA]] [[nfo]]'' double mutant is impaired in germination and spore outgrowth due to the accumulation of DNA lesions, this can be rescued by inactivation of ''[[disA]]'' {{PubMed|24244006}}
 === Database entries ===
@@ Line 76: / Line 77: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 106: / Line 107: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=exoAA_4197780_4198538_-1 exoA] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigG]] {{PubMed|16237020}}
+* '''[[Sigma factor]]:''' [[SigG]] {{PubMed|16237020}}
 * '''Regulation:'''
@@ Line 139: / Line 140: @@
 <pubmed> 22933559 </pubmed>
 == Original publications ==
-<pubmed>24244006,18203828,16237020, 19930460, 10540738 21441501 24123749 </pubmed>
+<pubmed>24244006,18203828,16237020, 19930460, 10540738 21441501 24123749 24123749</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 51: / Line 51: @@
 ===Phenotypes of a mutant ===
-** an ''[[exoA]] [[nfo]]'' double mutant is impaired in germination and spore outgrowth due to the accumulation of DNA lesions, this can be rescued by inactivation of ''[[disA]]'' {{PubMed|24244006}}
+* an ''[[exoA]] [[nfo]]'' double mutant is impaired in germination and spore outgrowth due to the accumulation of DNA lesions, this can be rescued by inactivation of ''[[disA]]'' {{PubMed|24244006}}
 === Database entries ===

← Older revision		Revision as of 12:52, 27 November 2013
Line 51:		Line 51:

	===Phenotypes of a mutant ===		===Phenotypes of a mutant ===
		+	** an ''[[exoA]] [[nfo]]'' double mutant is impaired in germination and spore outgrowth due to the accumulation of DNA lesions, this can be rescued by inactivation of ''[[disA]]'' {{PubMed\|24244006}}

	=== Database entries ===		=== Database entries ===

@@ Line 35: / Line 35: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 121: / Line 117: @@
 * '''Mutant:'''
-** available in [[Mario Pedraza-Reyes]]' lab
+** GP898 (''exoA''::''kan''), available in [[Jörg Stülke]]'s lab
-** GP898 (''exoA''::''kan''), available in [[Stülke]] lab
+** GP1503 (''exoA''::''kan'', ''nfo''::''cat''), available in [[Jörg Stülke]]'s lab
 * '''Expression vector:'''
@@ Line 143: / Line 138: @@
 <pubmed> 22933559 </pubmed>
 == Original publications ==
-<pubmed>18203828,16237020, 19930460, 10540738 21441501</pubmed>
+<pubmed>18203828,16237020, 19930460, 10540738 21441501 24123749 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 140: / Line 140: @@
 =References=
-'''Additional publications:''' {{PubMed|21441501}}
+==Reviews==
-<pubmed>18203828,16237020, 19930460, 10540738 </pubmed>
+<pubmed> 22933559 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 27: / Line 27: @@
   <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 |-
-|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=exoAA_4197780_4198538_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:exoA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=exoAA_4197780_4198538_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:exoA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU40880]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ccpB]]'', ''[[rpsR]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU40880 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU40880 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU40880 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU40880 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU40880 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU40880 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:exoA_context.gif]]